{ "type": "genome", "identifier": "GCF_002954605.1", "organism": "Polaribacter butkevichii", "title": "Polaribacter butkevichii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Atmosphere and Ocean Research Institute, The University of Tokyo", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002954605.1", "bioproject": "PRJNA224116", "biosample": "SAMN06133457", "wgs_master": "MSCK00000000.1", "refseq_category": "na", "taxid": "218490", "species_taxid": "218490", "organism_name": "Polaribacter butkevichii", "infraspecific_name": "strain=KCTC 12100", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/02/27", "asm_name": "ASM295460v1", "asm_submitter": "Atmosphere and Ocean Research Institute, The University of Tokyo", "gbrs_paired_asm": "GCA_002954605.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/954/605/GCF_002954605.1_ASM295460v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4085573", "genome_size_ungapped": "3981105", "gc_percent": "30.500000", "replicon_count": "0", "scaffold_count": "4", "contig_count": "4", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002954605.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "3407", "protein_coding_gene_count": "3342", "non_coding_gene_count": "50", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-02-27", "dateModified": "2018-02-27", "datePublished": "2018-02-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Polaribacter butkevichii" ], "sample_taxid": [ "218490" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan" ], "sample_host_location_id": [], "data_size": "1.090 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4085573", "Number of Sequences": "4", "Longest Sequences (bp)": "2521672", "N50 (bp)": "2521672", "Gap Ratio (%)": "2.556998", "GCcontent (%)": "30.4", "Number of CDSs": "3365", "Average Protein Length": "349.5", "Coding Ratio (%)": "86.4", "Number of rRNAs": "2", "Number of tRNAs": "44", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Polaribacter butkevichii", "strain": "strain=KCTC 12100", "accession": "GCA_002954605.1", "taxid": 218490, "species_taxid": 218490, 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84.7929, "matched_fragments": 925, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter pectinis", "strain": "strain=L12M9", "accession": "GCA_014352875.1", "taxid": 2738844, "species_taxid": 2738844, "relation_to_type": "type", "validated": true, "ani": 81.5731, "matched_fragments": 700, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter reichenbachii", "strain": "strain=KCTC 23969", "accession": "GCA_002814055.1", "taxid": 996801, "species_taxid": 996801, "relation_to_type": "type", "validated": true, "ani": 80.9875, "matched_fragments": 731, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter haliotis", "strain": "strain=RA4-7", "accession": "GCA_002201315.1", "taxid": 1888915, "species_taxid": 1888915, "relation_to_type": "type", "validated": true, "ani": 80.7467, "matched_fragments": 687, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter vadi", "strain": "strain=LPB0003", "accession": "GCA_001680885.1", "taxid": 1774273, "species_taxid": 1774273, "relation_to_type": "type", "validated": true, "ani": 80.6306, "matched_fragments": 679, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter vadi", "strain": "strain=LPB0003", "accession": "GCA_001761365.1", "taxid": 1774273, "species_taxid": 1774273, "relation_to_type": "type", "validated": true, "ani": 80.6076, "matched_fragments": 680, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter cellanae", "strain": "strain=SM13", "accession": "GCA_017569185.1", "taxid": 2818493, "species_taxid": 2818493, "relation_to_type": "type", "validated": true, "ani": 80.0557, "matched_fragments": 664, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter batillariae", "strain": "strain=G4M1", "accession": "GCA_017498485.1", "taxid": 2808900, "species_taxid": 2808900, "relation_to_type": "type", "validated": true, "ani": 80.0468, "matched_fragments": 636, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter dokdonensis", "strain": "strain=KCTC 12392", "accession": "GCA_024362345.1", "taxid": 326329, "species_taxid": 326329, "relation_to_type": "type", "validated": true, "ani": 79.7543, "matched_fragments": 562, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter litorisediminis", "strain": "strain=OITF-11", "accession": "GCA_019968605.1", "taxid": 1908341, "species_taxid": 1908341, "relation_to_type": "type", "validated": true, "ani": 79.6198, "matched_fragments": 601, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, 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"num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_001640115.1", "gtdb_species": "s__Polaribacter atrinae", "ani": 86.8927, "matched_fragments": 921, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Polaribacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_016858305.2", "gtdb_species": "s__Polaribacter sp016858305", "ani": 85.173, "matched_fragments": 934, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Polaribacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { 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"gtdb_species": "s__Polaribacter sp000766795", "ani": 83.5885, "matched_fragments": 810, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Polaribacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.351, "cell_length": 0.169, "doubling_h": null, "growth_tmp": 9.75, "optimum_tmp": 20.437, "optimum_ph": 7.25, "genome_size": 4097747.844, "gc_content": 31.525, "coding_genes": 3329.75, "rRNA16S_genes": 3.0, "tRNA_genes": 41.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.2, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 1.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Polaribacter", "butkevichii" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }